Full thread dump Java HotSpot(TM) Client VM (1.5.0_11-b03 mixed mode):

"Timer-1" prio=6 tid=0x167d76c8 nid=0x124 in Object.wait() [0x17cdf000..0x17cdfb6c]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x03fc00a0> (a java.util.TaskQueue)
        at java.lang.Object.wait(Object.java:474)
        at java.util.TimerThread.mainLoop(Timer.java:483)
        - locked <0x03fc00a0> (a java.util.TaskQueue)
        at java.util.TimerThread.run(Timer.java:462)

"pool-1-thread-1" prio=6 tid=0x167e3cc8 nid=0x67c waiting on condition [0x17bdf000..0x17bdfc6c]
        at sun.misc.Unsafe.park(Native Method)
        at java.util.concurrent.locks.LockSupport.park(LockSupport.java:118)
        at java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1767)
        at java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:359)
        at java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:470)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:674)
        at java.lang.Thread.run(Thread.java:595)

"Inactive RequestProcessor thread [Was:CaretAwareJavaSourceTaskFactory worker/org.netbeans.api.java.source.support.CaretAwareJavaSourceTaskFactory$ComponentListener$1]" daemon prio=2 tid=0x1676e2e0 ni
d=0x204 in Object.wait() [0x17b5f000..0x17b5fcec]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x05378d90> (a java.lang.Object)
        at org.openide.util.RequestProcessor$Processor.run(RequestProcessor.java:916)
        - locked <0x05378d90> (a java.lang.Object)

"Java Source Worker Thread" daemon prio=2 tid=0x1653c008 nid=0x368 waiting on condition [0x17adf000..0x17adfd6c]
        at sun.misc.Unsafe.park(Native Method)
        at java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:146)
        at java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:1803)
        at java.util.concurrent.PriorityBlockingQueue.poll(PriorityBlockingQueue.java:236)
        at org.netbeans.api.java.source.JavaSource$CompilationJob.run(JavaSource.java:1097)
        at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:417)
        at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:269)
        at java.util.concurrent.FutureTask.run(FutureTask.java:123)
        at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:650)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:675)
        at java.lang.Thread.run(Thread.java:595)

"Inactive RequestProcessor thread [Was:TimedSoftReference/org.openide.util.TimedSoftReference]" daemon prio=2 tid=0x16427fb8 nid=0xbec in Object.wait() [0x1725f000..0x1725f9ec]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x052a5470> (a java.lang.Object)
        at org.openide.util.RequestProcessor$Processor.run(RequestProcessor.java:916)
        - locked <0x052a5470> (a java.lang.Object)

"DestroyJavaVM" prio=6 tid=0x000386f0 nid=0xa1c waiting on condition [0x00000000..0x0007fae8]

"AWT-EventQueue-1" prio=6 tid=0x163942c8 nid=0x310 waiting for monitor entry [0x171df000..0x171dfaec]
        at org.openide.filesystems.FileUtil.getJavaSpecVersion(FileUtil.java:1305)
        - waiting to lock <0x0c150fd8> (a java.lang.Class)
        at org.openide.filesystems.FileUtil.is4089199(FileUtil.java:1300)
        at org.openide.filesystems.FileUtil.canBeCanonicalizedOnWindows(FileUtil.java:1291)
        at org.openide.filesystems.FileUtil.normalizeFileOnWindows(FileUtil.java:1273)
        at org.openide.filesystems.FileUtil.normalizeFile(FileUtil.java:1178)
        at org.openide.filesystems.FileUtil.toFileObject(FileUtil.java:507)
        at org.netbeans.modules.java.source.usages.RepositoryUpdater.registerFileSystemListener(RepositoryUpdater.java:384)
        at org.netbeans.modules.java.source.usages.RepositoryUpdater.<init>(RepositoryUpdater.java:149)
        at org.netbeans.modules.java.source.usages.RepositoryUpdater.getDefault(RepositoryUpdater.java:1743)
        - locked <0x0d6c39c8> (a java.lang.Class)
        at org.netbeans.modules.java.source.JBrowseModule$1.run(JBrowseModule.java:77)
        at org.netbeans.core.windows.WindowManagerImpl$Exclusive.run(WindowManagerImpl.java:1209)
        at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
        at java.awt.EventQueue.dispatchEvent(EventQueue.java:461)
        at java.awt.EventDispatchThread.pumpOneEventForHierarchy(EventDispatchThread.java:242)
        at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:163)
        at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:157)
        at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:149)
        at java.awt.EventDispatchThread.run(EventDispatchThread.java:110)

"TimerQueue" daemon prio=6 tid=0x1658e480 nid=0x2fc in Object.wait() [0x16ebf000..0x16ebfb6c]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x05086bc8> (a javax.swing.TimerQueue)
        at javax.swing.TimerQueue.postExpiredTimers(TimerQueue.java:218)
        - locked <0x05086bc8> (a javax.swing.TimerQueue)
        at javax.swing.TimerQueue.run(TimerQueue.java:234)
        - locked <0x05086bc8> (a javax.swing.TimerQueue)
        at java.lang.Thread.run(Thread.java:595)

"Thread-3" daemon prio=6 tid=0x16257c50 nid=0xa94 in Object.wait() [0x1715f000..0x1715fbec]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x04ffc288> (a java.util.LinkedList)
        at java.lang.Object.wait(Object.java:474)
        at java.util.prefs.AbstractPreferences$EventDispatchThread.run(AbstractPreferences.java:1456)
        - locked <0x04ffc288> (a java.util.LinkedList)

"Java Node Badge Processor" daemon prio=2 tid=0x165eada8 nid=0x7cc waiting on condition [0x1704f000..0x1704fcec]
        at sun.misc.Unsafe.park(Native Method)
        at java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:146)
        at java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:1803)
        at java.util.concurrent.LinkedBlockingQueue.poll(LinkedBlockingQueue.java:396)
        at org.netbeans.modules.java.JavaNode$2.run(JavaNode.java:255)
        at org.openide.util.RequestProcessor$Task.run(RequestProcessor.java:541)
        at org.openide.util.RequestProcessor$Processor.run(RequestProcessor.java:963)

"AWT-Windows" daemon prio=6 tid=0x16555238 nid=0xbf4 runnable [0x16d6f000..0x16d6fa6c]
        at sun.awt.windows.WToolkit.eventLoop(Native Method)
        at sun.awt.windows.WToolkit.run(WToolkit.java:269)
        at java.lang.Thread.run(Thread.java:595)

"AWT-Shutdown" prio=6 tid=0x16556c60 nid=0xa08 in Object.wait() [0x16cef000..0x16cefaec]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x048246a0> (a java.lang.Object)
        at java.lang.Object.wait(Object.java:474)
        at sun.awt.AWTAutoShutdown.run(AWTAutoShutdown.java:259)
        - locked <0x048246a0> (a java.lang.Object)
        at java.lang.Thread.run(Thread.java:595)

"Java2D Disposer" daemon prio=10 tid=0x1621cd40 nid=0x848 in Object.wait() [0x16c6f000..0x16c6fb6c]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x04824728> (a java.lang.ref.ReferenceQueue$Lock)
        at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:116)
        - locked <0x04824728> (a java.lang.ref.ReferenceQueue$Lock)
        at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:132)
        at sun.java2d.Disposer.run(Disposer.java:125)
        at java.lang.Thread.run(Thread.java:595)

"JavaSourceTaskFactory" daemon prio=2 tid=0x1622b8f8 nid=0xb30 in Object.wait() [0x16a1f000..0x16a1fc6c]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x05372200> (a java.awt.EventQueue$1AWTInvocationLock)
        at java.lang.Object.wait(Object.java:474)
        at java.awt.EventQueue.invokeAndWait(EventQueue.java:848)
        - locked <0x05372200> (a java.awt.EventQueue$1AWTInvocationLock)
        at javax.swing.SwingUtilities.invokeAndWait(SwingUtilities.java:1257)
        at org.openide.filesystems.FileUtil.getFileSystemView(FileUtil.java:1316)
        - locked <0x0c150fd8> (a java.lang.Class)
        at org.openide.filesystems.FileUtil.canBeCanonicalizedOnWindows(FileUtil.java:1292)
        at org.openide.filesystems.FileUtil.normalizeFileOnWindows(FileUtil.java:1273)
        at org.openide.filesystems.FileUtil.normalizeFile(FileUtil.java:1178)
        at org.openide.filesystems.FileUtil.toFileObject(FileUtil.java:507)
        at org.netbeans.api.java.classpath.ClassPath$RootsListener.getFileSystems(ClassPath.java:917)
        at org.netbeans.api.java.classpath.ClassPath$RootsListener.addRoot(ClassPath.java:754)
        at org.netbeans.api.java.classpath.ClassPath.createRoots(ClassPath.java:227)
        at org.netbeans.api.java.classpath.ClassPath.getRoots(ClassPath.java:210)
        - locked <0x0504ead0> (a org.netbeans.api.java.classpath.ClassPath)
        at org.netbeans.api.java.classpath.ClassPath.findOwnerRoot(ClassPath.java:391)
        at org.netbeans.api.java.source.JavaSource.<init>(JavaSource.java:381)
        at org.netbeans.api.java.source.JavaSource.create(JavaSource.java:266)
        at org.netbeans.api.java.source.JavaSource.create(JavaSource.java:288)
        at org.netbeans.api.java.source.JavaSource.forFileObject(JavaSource.java:316)
        at org.netbeans.api.java.source.JavaSourceTaskFactory.stateChangedImpl(JavaSourceTaskFactory.java:157)
        - locked <0x05057a98> (a org.netbeans.modules.j2ee.jpa.verification.JPAProblemFinderFactory)
        at org.netbeans.api.java.source.JavaSourceTaskFactory.access$000(JavaSourceTaskFactory.java:56)
        at org.netbeans.api.java.source.JavaSourceTaskFactory$1.run(JavaSourceTaskFactory.java:117)
        at org.openide.util.RequestProcessor$Task.run(RequestProcessor.java:541)
        at org.openide.util.RequestProcessor$Processor.run(RequestProcessor.java:963)

"Timer-0" daemon prio=6 tid=0x1639aa40 nid=0x9a8 in Object.wait() [0x1699f000..0x1699fcec]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x0476d5d8> (a java.util.TaskQueue)
        at java.lang.Object.wait(Object.java:474)
        at java.util.TimerThread.mainLoop(Timer.java:483)
        - locked <0x0476d5d8> (a java.util.TaskQueue)
        at java.util.TimerThread.run(Timer.java:462)

"CLI Requests Server" daemon prio=6 tid=0x162161c8 nid=0x8b8 runnable [0x1691f000..0x1691fd6c]
        at java.net.PlainSocketImpl.socketAccept(Native Method)
        at java.net.PlainSocketImpl.accept(PlainSocketImpl.java:384)
        - locked <0x0476d6a8> (a java.net.SocksSocketImpl)
        at java.net.ServerSocket.implAccept(ServerSocket.java:450)
        at java.net.ServerSocket.accept(ServerSocket.java:421)
        at org.netbeans.CLIHandler$Server.run(CLIHandler.java:961)

"Active Reference Queue Daemon" daemon prio=2 tid=0x01d7f0c0 nid=0xb38 in Object.wait() [0x163df000..0x163df9ec]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x0476d828> (a java.lang.ref.ReferenceQueue$Lock)
        at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:116)
        - locked <0x0476d828> (a java.lang.ref.ReferenceQueue$Lock)
        at org.openide.util.Utilities$ActiveQueue.run(Utilities.java:3028)
        at java.lang.Thread.run(Thread.java:595)

"Low Memory Detector" daemon prio=6 tid=0x01d49a00 nid=0xa00 runnable [0x00000000..0x00000000]

"CompilerThread0" daemon prio=10 tid=0x01d48728 nid=0x9e8 waiting on condition [0x00000000..0x1605f84c]

"Signal Dispatcher" daemon prio=10 tid=0x01d47aa0 nid=0xa28 waiting on condition [0x00000000..0x00000000]

"Finalizer" daemon prio=8 tid=0x01d3e1c8 nid=0xbd8 in Object.wait() [0x15f5f000..0x15f5fc6c]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x0476d9d0> (a java.lang.ref.ReferenceQueue$Lock)
        at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:116)
        - locked <0x0476d9d0> (a java.lang.ref.ReferenceQueue$Lock)
        at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:132)
        at java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:159)

"Reference Handler" daemon prio=10 tid=0x01cfcde0 nid=0x6ec in Object.wait() [0x15edf000..0x15edfcec]
        at java.lang.Object.wait(Native Method)
        - waiting on <0x0476d480> (a java.lang.ref.Reference$Lock)
        at java.lang.Object.wait(Object.java:474)
        at java.lang.ref.Reference$ReferenceHandler.run(Reference.java:116)
        - locked <0x0476d480> (a java.lang.ref.Reference$Lock)

"VM Thread" prio=10 tid=0x000355a0 nid=0xa0c runnable

"VM Periodic Task Thread" prio=10 tid=0x01d47918 nid=0xa7c waiting on condition